Groovy Map containing sample information
e.g. [ id:‘test’, single_end
]
bam (file)
A sorted (with samtools sort) and trimmed (with iVar trim) bam file
*.bam
fasta (file)
The reference sequence used for mapping and generating the BAM file
*.fa
fai (file)
The index for the reference sequence used for mapping and generating the BAM file
*.fai
gff (file)
A GFF file in the GFF3 format can be supplied to specify coordinates of open reading frames (ORFs). In absence of GFF file, amino acid translation will not be done.
save_mpileup (boolean)
Save mpileup file generated by ivar variants
Output
Name (Type)
Description
Pattern
meta (map)
Groovy Map containing sample information
e.g. [ id:‘test’, single_end
